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ismrmrd / ge_to_ismrmrd

GE to ISMRMRD converter
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dependencies #1

Closed curtcorum closed 7 years ago

curtcorum commented 7 years ago

Is there a preferred version of the orchestra-sdk? Version 1.6.1 seems to have a different directory structure than the version originally used. CMAKE fails to find various dependencies or thinks orchestra is not present depending on $SDKTOP.

hansenms commented 7 years ago

@roopchansinghv This one is for you.

roopchansinghv commented 7 years ago

The last version of Orchestra I verified the build of ge_to_ismrmrd with is Orchestra 1.3-24. I recently updated to 1.6, but ran into the same issues you did, and have not had a chance to work through the new directory structure.

roopchansinghv commented 7 years ago

I've created a new branch of this converter (test_1.6) that compiles against the 1.6 version of the Orchestra SDK. However, there is an issue on my platform with building ISMRMRD with the vendor's supplied static HDF5 libraries. See here:

https://github.com/ismrmrd/ismrmrd/issues/97

However, this issue might be particular to my setup. Feel free to build ISMRMRD as prescribed here, then build ge_to_ismrmrd, and let us know if you can run the base test.

roopchansinghv commented 7 years ago

Removing the version of HDF5 supplied by the OS I use (openSUSE) and using the version that comes with Orchestra, along with the updated compiler flags, resolved this issue. When converting the P-file supplied with this repository, the command ends with a "Segmentation fault" message. However, a HDF5 file is generated, and when reconstructed, produces an image, and passes the basic test.